Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_file Sequencer dataset type classification start end gene chr ref_allele tum_allele1 tum_allele2 context SEPN1 57190 broad.mit.edu 36 1 26000121 26000121 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 26000121 26000121 SEPN1 1 G G T 41 ATXN7L2 127002 broad.mit.edu 36 1 109831160 109831160 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 109831160 109831160 ATXN7L2 1 C C T 17 ANKRD35 148741 broad.mit.edu 36 1 144274409 144274409 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 144274409 144274409 ANKRD35 1 G G A 33 S100A6 6277 broad.mit.edu 36 1 151774380 151774380 + Silent SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 151774380 151774380 S100A6 1 G G T 39 RHBG 57127 broad.mit.edu 36 1 154618297 154618297 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154618297 154618297 RHBG 1 G G T 43 NES 10763 broad.mit.edu 36 1 154911706 154911706 + Silent SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 154911706 154911706 NES 1 G G T 37 INSRR 3645 broad.mit.edu 36 1 155090215 155090215 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 155090215 155090215 INSRR 1 C C A 28 RABGAP1L 9910 broad.mit.edu 36 1 172456750 172456750 + Missense_Mutation SNP T T G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 172456750 172456750 RABGAP1L 1 T T G 51 CENPF 1063 broad.mit.edu 36 1 212879925 212879925 + Nonsense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 212879925 212879925 CENPF 1 C C T 29 RAB3GAP2 25782 broad.mit.edu 36 1 218404757 218404757 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 218404757 218404757 RAB3GAP2 1 C C T 19 OR2M2 391194 broad.mit.edu 36 1 246409972 246409972 + Missense_Mutation SNP G G A rs34678055 Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 246409972 246409972 OR2M2 1 G G A 34 ZEB1 6935 broad.mit.edu 36 10 31849766 31849766 + Silent SNP T T C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31849766 31849766 ZEB1 10 T T C 53 OR10A5 144124 broad.mit.edu 36 11 6824073 6824073 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6824073 6824073 OR10A5 11 T T A 55 MED19 219541 broad.mit.edu 36 11 57228832 57228832 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57228832 57228832 MED19 11 T T A 55 ZFP91 80829 broad.mit.edu 36 11 58141539 58141539 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58141539 58141539 ZFP91 11 G G C 47 PELI3 246330 broad.mit.edu 36 11 65999994 65999994 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65999994 65999994 PELI3 11 G G C 47 USP2 9099 broad.mit.edu 36 11 118735051 118735051 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 118735051 118735051 USP2 11 C C G 28 ATF7IP 55729 broad.mit.edu 36 12 14468581 14468581 + Silent SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 14468581 14468581 ATF7IP 12 C C A 24 ABCC9 10060 broad.mit.edu 36 12 21978114 21978114 + Silent SNP G G A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 21978114 21978114 ABCC9 12 G G A 42 SLC38A1 81539 broad.mit.edu 36 12 44887277 44887277 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44887277 44887277 SLC38A1 12 C C T 28 C14orf43 91748 broad.mit.edu 36 14 73275501 73275501 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73275501 73275501 C14orf43 14 G G A 38 DLK1 8788 broad.mit.edu 36 14 100270317 100270317 + Silent SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100270317 100270317 DLK1 14 C C T 28 C15orf55 256646 broad.mit.edu 36 15 32436004 32436004 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 32436004 32436004 C15orf55 15 G G T 35 PLCB2 5330 broad.mit.edu 36 15 38381454 38381454 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38381454 38381454 PLCB2 15 C C T 26 LTK 4058 broad.mit.edu 36 15 39583588 39583588 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39583588 39583588 LTK 15 C C G 22 ZWILCH 55055 broad.mit.edu 36 15 64603096 64603096 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64603096 64603096 ZWILCH 15 A A G 7 CASKIN1 57524 broad.mit.edu 36 16 2179082 2179082 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2179082 2179082 CASKIN1 16 G G C 40 XYLT1 64131 broad.mit.edu 36 16 17199622 17199622 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17199622 17199622 XYLT1 16 C C T 31 HYDIN 54768 broad.mit.edu 36 16 69512218 69512218 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 69512218 69512218 HYDIN 16 G G A 40 COL1A1 1277 broad.mit.edu 36 17 45627423 45627423 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45627423 45627423 COL1A1 17 C C G 18 INSR 3643 broad.mit.edu 36 19 7076412 7076412 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7076412 7076412 INSR 19 T T A 56 FBXW9 84261 broad.mit.edu 36 19 12661620 12661620 + Silent SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 12661620 12661620 FBXW9 19 C C G 25 ZNF565 147929 broad.mit.edu 36 19 41365855 41365855 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41365855 41365855 ZNF565 19 C C T 21 POLD1 5424 broad.mit.edu 36 19 55612996 55612996 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55612996 55612996 POLD1 19 C C G 22 BIRC6 57448 broad.mit.edu 36 2 32470676 32470676 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 32470676 32470676 BIRC6 2 G G C 35 USP34 9736 broad.mit.edu 36 2 61460976 61460976 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61460976 61460976 USP34 2 C C G 24 SPRED2 200734 broad.mit.edu 36 2 65425505 65425505 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65425505 65425505 SPRED2 2 A A T 6 ELMOD3 84173 broad.mit.edu 36 2 85452122 85452122 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 85452122 85452122 ELMOD3 2 T T A 50 POTEF 728378 broad.mit.edu 36 2 130594259 130594259 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130594259 130594259 POTEF 2 C C A 20 TTN 7273 broad.mit.edu 36 2 179330634 179330634 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179330634 179330634 TTN 2 C C A 24 PAX3 5077 broad.mit.edu 36 2 222793186 222793186 + Missense_Mutation SNP A A C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 222793186 222793186 PAX3 2 A A C 9 CEP250 11190 broad.mit.edu 36 20 33549214 33549214 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33549214 33549214 CEP250 20 T T C 54 KCNG1 3755 broad.mit.edu 36 20 49060031 49060031 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49060031 49060031 KCNG1 20 G G T 41 MST1R 4486 broad.mit.edu 36 3 49908185 49908185 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 49908185 49908185 MST1R 3 C C A 18 NISCH 11188 broad.mit.edu 36 3 52499841 52499841 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52499841 52499841 NISCH 3 C C A 24 COL6A6 131873 broad.mit.edu 36 3 131850964 131850964 + Silent SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 131850964 131850964 COL6A6 3 C C T 21 C4orf35 85438 broad.mit.edu 36 4 71235661 71235661 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71235661 71235661 C4orf35 4 A A G 8 MAP9 79884 broad.mit.edu 36 4 156500847 156500847 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 156500847 156500847 MAP9 4 C C A 29 MYO10 4651 broad.mit.edu 36 5 16754433 16754433 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16754433 16754433 MYO10 5 C C T 23 CMYA5 202333 broad.mit.edu 36 5 79069609 79069609 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 79069609 79069609 CMYA5 5 G G T 33 LNPEP 4012 broad.mit.edu 36 5 96340696 96340696 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 96340696 96340696 LNPEP 5 G G T 33 CUL7 9820 broad.mit.edu 36 6 43125345 43125345 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43125345 43125345 CUL7 6 C C T 19 KHDRBS2 202559 broad.mit.edu 36 6 62662622 62662622 + Silent SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62662622 62662622 KHDRBS2 6 G G C 43 ROS1 6098 broad.mit.edu 36 6 117771957 117771957 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 117771957 117771957 ROS1 6 T T C 61 GRM1 2911 broad.mit.edu 36 6 146393018 146393018 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 146393018 146393018 GRM1 6 G G T 41 ABCB5 340273 broad.mit.edu 36 7 20733216 20733216 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20733216 20733216 ABCB5 7 G G A 40 MYO1G 64005 broad.mit.edu 36 7 44983057 44983057 + Silent SNP G G C novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 44983057 44983057 MYO1G 7 G G C 33 C7orf64 84060 broad.mit.edu 36 7 92002185 92002185 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92002185 92002185 C7orf64 7 A A G 14 HEPACAM2 253012 broad.mit.edu 36 7 92682755 92682755 + Missense_Mutation SNP G G C rs35608547 Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92682755 92682755 HEPACAM2 7 G G C 35 AHCYL2 23382 broad.mit.edu 36 7 128827403 128827403 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128827403 128827403 AHCYL2 7 A A G 12 EYA1 2138 broad.mit.edu 36 8 72429579 72429579 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72429579 72429579 EYA1 8 C C T 26 TG 7038 broad.mit.edu 36 8 134103563 134103563 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 134103563 134103563 TG 8 G G T 42 ADAMTSL1 92949 broad.mit.edu 36 9 18767219 18767219 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18767219 18767219 ADAMTSL1 9 C C A 21 TBX22 50945 broad.mit.edu 36 X 79167900 79167900 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 79167900 79167900 TBX22 23 C C A 20 TP53 7157 broad.mit.edu 36 17 7518291 7518292 + Frame_Shift_Ins INS - A - novel Unknown TCGA-13-0883-01 TCGA-13-0883-10 A - - - Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Ins INS 7518291 7518292 TP53 17 - A - 61